ArticleMicrobial ecology2010
Microbial protein in soil: influence of extraction method and C amendment on extraction and recovery.
Article in Microbial ecology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers, 1 of them a synthesis that pooled it.
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Who cites it
14 citing papers in PubMed, 1 synthesis or guideline pooled it, 69 citations in OpenAlex.
- Soil and leaf litter metaproteomics-a brief guideline from sampling to understanding.FEMS microbiology ecology · 2016Guideline
- Soil Metaproteomics for Microbial Community Profiling: Methodologies and Challenges.Current microbiology · 2024Review
- Critical Assessment of MetaProteome Investigation (CAMPI): a multi-laboratory comparison of established workflows.Nature communications · 2021Article
- Activity profile of innate immune-related enzymes and bactericidal of freshwater fish epidermal mucus extract at different pH.Environmental science and pollution research international · 2021Article
- Soil Metaproteomics for the Study of the Relationships Between Microorganisms and Plants: A Review of Extraction Protocols and Ecological Insights.International journal of molecular sciences · 2020Review
- Adaptation of Carbon Source Utilization Patterns ofFrontiers in microbiology · 2020Article
- A Small Effort for Researchers, a Big Gain for Soil Metaproteomics.Frontiers in microbiology · 2020Article
- An Effective Method of Isolating Honey Proteins.Molecules (Basel, Switzerland) · 2019Article
- Environmental Microbial Community Proteomics: Status, Challenges and Perspectives.International journal of molecular sciences · 2016Review
- A comparison of two colorimetric assays, based upon Lowry and Bradford techniques, to estimate total protein in soil extracts.Soil biology & biochemistry · 2013Article
- Metaproteomic analysis of ratoon sugarcane rhizospheric soil.BMC microbiology · 2013Article
- Metaproteomics: harnessing the power of high performance mass spectrometry to identify the suite of proteins that control metabolic activities in microbial communities.Analytical chemistry · 2013Review
- Soil metaproteomics - Comparative evaluation of protein extraction protocols.Soil biology & biochemistry · 2012Article
- Comparative metaproteomic analysis on consecutively Rehmannia glutinosa-monocultured rhizosphere soil.PloS one · 2011Article
Corrections and comments
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The capacity to study the content and resolve the dynamics of the proteome of diverse microbial communities would help to revolutionize the way microbiologists study the function and activity of microorganisms in soil. To better understand the limitations of a proteomic approach to studying soil microbial communities, we characterized extractable soil microbial proteins using sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE). Two methods were utilized to extract proteins from microorganisms residing in a Quitman and Benfield soil: (1) direct extraction of bulk protein from soil and (2) separation of the microorganisms from soil using density gradient centrifugation and subsequent extraction (DGC-EXT) of microbial protein. In addition, glucose and toluene amendments to soil were used to stimulate the growth of a subset of the microbial community. A bacterial culture and bovine serum albumin (BSA) were added to the soil to qualitatively assess their recovery following extraction. Direct extraction and resolution of microbial proteins using SDS-PAGE generally resulted in smeared and unresolved banding patterns on gels. DGC-EXT of microbial protein from soil followed by separation using SDS-PAGE, however, did resolve six to 10 bands in the Benfield but not the Quitman soil. DGC-EXT of microbial protein, but not direct extraction following the addition of glucose and toluene, markedly increased the number of bands (approximately 40) on the gels in both Benfield and Quitman soils. Low recoveries of added culture and BSA proteins using the direct extraction method suggest that proteins either bind to soil organic matter and mineral particles or that partial degradation takes place during extraction. Interestingly, DGC may have been preferentially selected for actively growing cells, as gauged by the 10-100x lower cy19:0/18:1omega7 ratio of the fatty acid methyl esters in the isolated community compared to that for the whole soil. DGC can be used to isolate soil communities and provide microbial protein that can be characterized using PAGE.
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